HXA7.H12INVIVO.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXA7.H12INVIVO.0.SM.D
Gene (human)	HOXA7 (GeneCards)
Gene synonyms (human)	HOX1A
Gene (mouse)	Hoxa7
Gene synonyms (mouse)	Hox-1.1, Hoxa-7
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	13
Consensus	nnvbTAATKRbnn
GC content	40.03%
Information content (bits; total / per base)	10.058 / 0.774
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9116

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.943	0.91	0.912	0.873	0.861	0.82
Overall, 2 experiments	best	0.956	0.929	0.929	0.895	0.879	0.842
Methyl HT-SELEX, 1 experiments	median	0.931	0.891	0.896	0.851	0.843	0.799
Methyl HT-SELEX, 1 experiments	best	0.931	0.891	0.896	0.851	0.843	0.799
Non-Methyl HT-SELEX, 1 experiments	median	0.956	0.929	0.929	0.895	0.879	0.842
Non-Methyl HT-SELEX, 1 experiments	best	0.956	0.929	0.929	0.895	0.879	0.842

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	HOX-related {3.1.1} (TFClass)
TF subfamily	HOX6-7 {3.1.1.6} (TFClass)
TFClass ID	TFClass: 3.1.1.6.4
HGNC	HGNC:5108
MGI	MGI:96179
EntrezGene (human)	GeneID:3204 (SSTAR profile)
EntrezGene (mouse)	GeneID:15404 (SSTAR profile)
UniProt ID (human)	HXA7_HUMAN
UniProt ID (mouse)	HXA7_MOUSE
UniProt AC (human)	P31268 (TFClass)
UniProt AC (mouse)	P02830 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	HXA7.H12INVIVO.0.SM.D.pcm
PWM	HXA7.H12INVIVO.0.SM.D.pwm
PFM	HXA7.H12INVIVO.0.SM.D.pfm
Alignment	HXA7.H12INVIVO.0.SM.D.words.tsv
Threshold to P-value map	HXA7.H12INVIVO.0.SM.D.thr
Motif in other formats
JASPAR format	HXA7.H12INVIVO.0.SM.D_jaspar_format.txt
MEME format	HXA7.H12INVIVO.0.SM.D_meme_format.meme
Transfac format	HXA7.H12INVIVO.0.SM.D_transfac_format.txt
Homer format	HXA7.H12INVIVO.0.SM.D_homer_format_0.001.txt HXA7.H12INVIVO.0.SM.D_homer_format_0.0005.txt HXA7.H12INVIVO.0.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2472.0	2051.0	2546.0	2047.0
02	1858.0	3539.0	1938.0	1781.0
03	2275.0	2792.0	3315.0	734.0
04	930.0	2426.0	1961.0	3799.0
05	10.0	17.0	0.0	9089.0
06	9116.0	0.0	0.0	0.0
07	9116.0	0.0	0.0	0.0
08	0.0	179.0	0.0	8937.0
09	82.0	174.0	5135.0	3725.0
10	4103.0	171.0	4454.0	388.0
11	771.0	4587.0	2147.0	1611.0
12	1535.0	3398.0	2234.0	1949.0
13	2290.0	2439.0	1933.0	2454.0

PFM

	A	C	G	T
01	0.271	0.225	0.279	0.225
02	0.204	0.388	0.213	0.195
03	0.25	0.306	0.364	0.081
04	0.102	0.266	0.215	0.417
05	0.001	0.002	0.0	0.997
06	1.0	0.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.02	0.0	0.98
09	0.009	0.019	0.563	0.409
10	0.45	0.019	0.489	0.043
11	0.085	0.503	0.236	0.177
12	0.168	0.373	0.245	0.214
13	0.251	0.268	0.212	0.269

PWM

	A	C	G	T
01	0.081	-0.105	0.111	-0.107
02	-0.204	0.44	-0.162	-0.246
03	-0.002	0.203	0.374	-1.131
04	-0.895	0.062	-0.15	0.511
05	-5.225	-4.773	-6.909	1.383
06	1.386	-6.909	-6.909	-6.909
07	1.386	-6.909	-6.909	-6.909
08	-6.909	-2.532	-6.909	1.366
09	-3.298	-2.56	0.812	0.491
10	0.588	-2.578	0.67	-1.766
11	-1.082	0.699	-0.06	-0.346
12	-0.395	0.399	-0.02	-0.156
13	0.005	0.068	-0.164	0.074

Standard thresholds

P-value	Threshold
0.001	4.89371
0.0005	6.259365
0.0001	7.65396